Java example source code file (anovaTestCases)

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The anovaTestCases Java example source code

# Licensed to the Apache Software Foundation (ASF) under one or more
# contributor license agreements.  See the NOTICE file distributed with
# this work for additional information regarding copyright ownership.
# The ASF licenses this file to You under the Apache License, Version 2.0
# (the "License"); you may not use this file except in compliance with
# the License.  You may obtain a copy of the License at
#
#      http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
#
#------------------------------------------------------------------------------
# R source file to validate Binomial distribution tests in
# org.apache.commons.math.distribution.BinomialDistributionTest
#
# To run the test, install R, put this file and testFunctions
# into the same directory, launch R from this directory and then enter
# source("<name-of-this-file>")
#
# R functions used
# anova(model) <- anova
# lm(frame) <- linear model
#------------------------------------------------------------------------------
tol <- 1E-12                       # error tolerance for tests
#------------------------------------------------------------------------------
# Function definitions

source("testFunctions")           # utility test functions
options(digits=16)				  # override number of digits displayed

# function to verify anova computations

verifyAnova <- function(frame, expectedP, expectedF, frameName) {
    a <- anova(lm(frame))
    p <- a$"Pr(>F)"[1]
    f <- a$"F value"[1]
    output <- c("P-value test frame = ", frameName)
    if (assertEquals(expectedP,p,tol,"P value")) {
        displayPadded(output, SUCCEEDED, WIDTH)
    } else {
        displayPadded(output, FAILED, WIDTH)
    }
    output <- c("F-value test frame = ", frameName)
    if (assertEquals(expectedF,f,tol,"F value")) {
        displayPadded(output, SUCCEEDED, WIDTH)
    } else {
        displayPadded(output, FAILED, WIDTH)
    }
}

#--------------------------------------------------------------------------
cat("Anova test cases\n")
classA <- c(93.0, 103.0, 95.0, 101.0, 91.0, 105.0, 96.0, 94.0, 101.0)
classB <- c(99.0, 92.0, 102.0, 100.0, 102.0, 89.0)
classC <- c(110.0, 115.0, 111.0, 117.0, 128.0, 117.0)

threeClasses = data.frame(val = c(classA, classB, classC),
class=c(rep("classA", length(classA)),
        rep("classB", length(classB)),
        rep("classC", length(classC))))

verifyAnova(threeClasses,6.959446e-06,  24.67361709460624, "Three classes")

twoClasses = data.frame(val = c(classA, classB),
class=c(rep("classA", length(classA)), rep("classB", length(classB))))
verifyAnova(twoClasses, 0.904212960464, 0.0150579150579, "Two classes")

displayDashes(WIDTH)